Calcium in PDB 6ya9: Crystal Structure of Rsgcamp in the on State (Non-Illuminated)

The structure of Crystal Structure of Rsgcamp in the on State (Non-Illuminated), PDB code: 6ya9 was solved by R.Janowski, J.P.Fuenzalida-Werner, K.Mishra, A.C.Stiel, D.Niessing, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.82 / 2.15
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	119.43, 119.43, 96.62, 90, 90, 90
R / Rfree (%)	18.7 / 23.1

The binding sites of Calcium atom in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated) (pdb code 6ya9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated), PDB code: 6ya9:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:65.3 occ:1.00 OD1 A:ASP432 2.3 54.5 1.0 O A:GLN438 2.3 54.2 1.0 OE1 A:GLU443 2.5 68.7 1.0 OE2 A:GLU443 2.5 85.7 1.0 OD1 A:ASP436 2.6 63.9 1.0 OD1 A:ASP434 2.7 66.9 1.0 CD A:GLU443 2.8 80.3 1.0 CG A:ASP436 3.2 80.6 1.0 CG A:ASP434 3.3 68.9 1.0 CG A:ASP432 3.4 68.4 1.0 C A:GLN438 3.4 63.5 1.0 OD2 A:ASP436 3.4 70.0 1.0 OD2 A:ASP434 3.6 80.7 1.0 OD2 A:ASP432 4.1 61.1 1.0 N A:ASN440 4.2 50.1 1.0 CB A:ASP432 4.2 73.6 1.0 CA A:ASP432 4.3 78.2 1.0 N A:GLN438 4.3 65.9 1.0 N A:VAL439 4.3 65.8 1.0 N A:ASP436 4.3 70.8 1.0 CA A:VAL439 4.3 58.5 1.0 CG A:GLU443 4.4 76.9 1.0 CA A:GLN438 4.4 65.0 1.0 CB A:ASP436 4.4 73.7 1.0 N A:ASP434 4.5 78.4 1.0 CB A:ASP434 4.6 69.3 1.0 N A:GLY435 4.6 70.0 1.0 N A:ILE433 4.7 68.6 1.0 C A:VAL439 4.7 51.6 1.0 CG A:ASN440 4.7 63.8 1.0 C A:ASP432 4.7 72.9 1.0 CB A:GLN438 4.8 62.4 1.0 CA A:ASP436 4.8 65.8 1.0 CA A:ASP434 4.9 77.7 1.0 ND2 A:ASN440 4.9 67.4 1.0 C A:ASP434 4.9 77.5 1.0 N A:GLY437 4.9 64.1 1.0 OD1 A:ASN440 4.9 61.6 1.0 CB A:ASN440 4.9 57.2 1.0

Calcium binding site 2 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:39.5 occ:1.00 O A:HOH747 2.2 44.1 1.0 OD1 A:ASP323 2.2 35.4 1.0 OD1 A:ASP327 2.4 44.2 1.0 O A:THR329 2.4 40.9 1.0 OD1 A:ASP325 2.5 44.5 1.0 OE1 A:GLU334 2.5 43.5 1.0 OE2 A:GLU334 2.6 42.8 1.0 CD A:GLU334 2.9 46.5 1.0 CG A:ASP327 3.3 39.5 1.0 CG A:ASP323 3.4 39.4 1.0 CG A:ASP325 3.4 42.7 1.0 C A:THR329 3.6 40.0 1.0 OD2 A:ASP325 3.9 43.0 1.0 OD2 A:ASP327 3.9 47.1 1.0 CA A:ASP323 4.0 40.0 1.0 O A:HOH605 4.1 53.3 1.0 CB A:ASP323 4.2 41.2 1.0 N A:THR329 4.2 36.2 1.0 N A:ASP327 4.2 37.9 1.0 CG2 A:THR329 4.4 43.9 1.0 OD2 A:ASP323 4.4 38.0 1.0 CG A:GLU334 4.4 42.0 1.0 CB A:ASP327 4.4 38.5 1.0 C A:ASP323 4.4 44.3 1.0 CA A:THR329 4.4 43.9 1.0 N A:ILE330 4.5 38.3 1.0 N A:ASP325 4.6 36.5 1.0 CA A:ILE330 4.6 41.3 1.0 CA A:ASP327 4.7 40.3 1.0 CB A:ASP325 4.7 40.8 1.0 O A:HOH621 4.7 44.0 1.0 N A:GLY326 4.7 39.5 1.0 N A:LYS324 4.7 44.0 1.0 N A:GLY328 4.8 37.8 1.0 O A:HOH635 4.8 49.6 1.0 C A:ASP327 4.9 41.8 1.0 O A:ASP323 4.9 41.0 1.0 CA A:ASP325 4.9 39.5 1.0 C A:ASP325 5.0 40.7 1.0 N A:THR331 5.0 40.1 1.0

Calcium binding site 3 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:42.4 occ:1.00 OD1 A:ASP359 2.3 36.8 1.0 O A:THR365 2.3 37.7 1.0 OD1 A:ASP361 2.4 46.0 1.0 OD1 A:ASP363 2.5 44.8 1.0 OE1 A:GLU370 2.5 34.6 1.0 OE2 A:GLU370 2.6 39.0 1.0 OD1 A:ASP367 2.6 53.0 1.0 CD A:GLU370 2.9 36.7 1.0 CG A:ASP363 3.3 49.0 1.0 CG A:ASP361 3.3 48.7 1.0 CG A:ASP359 3.4 36.5 1.0 C A:THR365 3.5 40.5 1.0 OD2 A:ASP361 3.7 50.6 1.0 OD2 A:ASP363 3.8 47.5 1.0 CG A:ASP367 3.9 54.2 1.0 OG1 A:THR365 4.1 40.2 1.0 N A:THR365 4.1 39.6 1.0 N A:ASP367 4.2 35.7 1.0 OD2 A:ASP359 4.2 43.0 1.0 N A:ASP363 4.2 46.2 1.0 CA A:ASP359 4.3 38.2 1.0 CB A:ASP363 4.3 46.2 1.0 CB A:ASP359 4.4 38.0 1.0 CA A:THR365 4.4 43.9 1.0 CG A:GLU370 4.4 37.8 1.0 N A:ILE366 4.4 38.0 1.0 N A:ASP361 4.4 51.6 1.0 CA A:ILE366 4.5 41.9 1.0 CB A:ASP361 4.5 48.7 1.0 C A:ASP359 4.5 36.8 1.0 CB A:ASP367 4.6 46.5 1.0 CA A:CA505 4.6 73.5 1.0 N A:GLY364 4.7 43.8 1.0 N A:ALA360 4.7 36.6 1.0 CA A:ASP363 4.7 47.2 1.0 O A:HOH641 4.7 57.4 1.0 N A:GLY362 4.7 50.5 1.0 C A:ILE366 4.8 41.4 1.0 CA A:ASP361 4.8 45.9 1.0 C A:ASP363 4.9 47.5 1.0 C A:ASP361 4.9 51.0 1.0 OD2 A:ASP367 4.9 57.9 1.0 CB A:THR365 4.9 44.1 1.0

Calcium binding site 4 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca504 b:68.7 occ:1.00 OD1 A:ASN400 2.2 65.3 1.0 OE1 A:GLU407 2.3 61.9 1.0 O A:TYR402 2.3 63.4 1.0 OE2 A:GLU407 2.4 56.3 1.0 O A:HOH603 2.6 60.8 1.0 CD A:GLU407 2.6 58.9 1.0 OD1 A:ASP396 2.7 59.1 1.0 OD1 A:ASP398 2.8 89.3 1.0 OD2 A:ASP398 3.1 103.2 1.0 CG A:ASP398 3.2 92.6 1.0 CG A:ASN400 3.3 72.3 1.0 C A:TYR402 3.5 55.8 1.0 CG A:ASP396 3.7 61.1 1.0 ND2 A:ASN400 4.1 75.6 1.0 CG A:GLU407 4.2 61.1 1.0 CA A:ASP396 4.2 70.2 1.0 CB A:ASN400 4.3 74.7 1.0 N A:TYR402 4.3 45.9 1.0 N A:ASN400 4.3 65.8 1.0 N A:ASP398 4.4 85.9 1.0 C A:ASP396 4.4 65.1 1.0 N A:ILE403 4.4 58.8 1.0 CA A:TYR402 4.4 55.5 1.0 CB A:ASP396 4.5 66.9 1.0 CA A:ILE403 4.5 59.5 1.0 CB A:ASP398 4.5 89.9 1.0 OD2 A:ASP396 4.5 65.1 1.0 N A:SER404 4.6 64.0 1.0 N A:LYS397 4.6 68.3 1.0 N A:GLY399 4.7 75.1 1.0 CA A:ASN400 4.8 73.0 1.0 CA A:ASP398 4.9 81.4 1.0 O A:ASP396 4.9 56.9 1.0 CB A:TYR402 4.9 62.5 1.0 N A:GLY401 4.9 60.6 1.0

Calcium binding site 5 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca505 b:73.5 occ:1.00 OD2 A:ASP361 2.6 50.6 1.0 OD2 A:ASP367 2.7 57.9 1.0 OD1 A:ASP367 2.8 53.0 1.0 OD2 A:ASP363 2.9 47.5 1.0 CG A:ASP367 3.1 54.2 1.0 O A:HOH606 3.4 59.2 1.0 CG A:ASP361 3.7 48.7 1.0 CG A:ASP363 3.8 49.0 1.0 OD1 A:ASP361 4.1 46.0 1.0 CB A:ASP363 4.4 46.2 1.0 OD1 A:ASP363 4.5 44.8 1.0 O A:HOH809 4.5 61.4 1.0 CB A:ASP367 4.6 46.5 1.0 CA A:CA503 4.6 42.4 1.0 CB A:ASP361 4.9 48.7 1.0

Calcium binding site 6 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca506 b:89.6 occ:1.00 O A:HOH797 2.6 64.4 1.0 OG1 A:THR255 3.5 35.8 1.0 O A:HOH818 3.7 59.5 1.0 CB A:TYR95 3.8 36.0 1.0 N A:THR255 4.0 35.5 1.0 O A:TYR95 4.0 34.8 1.0 CB A:THR255 4.1 36.2 1.0 C A:TYR95 4.2 36.3 1.0 C A:ARG254 4.5 35.4 1.0 OE1 A:GLN97 4.5 88.0 1.0 CA A:TYR95 4.6 34.9 1.0 CA A:THR255 4.7 36.1 1.0 N A:GLN96 4.7 32.0 1.0 O A:HOH748 4.8 46.4 1.0 CA A:ARG254 4.8 34.9 1.0 CG A:GLN97 4.8 64.0 1.0 CD A:GLN97 4.9 84.5 1.0 CG A:TYR95 4.9 34.6 1.0

Calcium binding site 7 out of 7 in the Crystal Structure of Rsgcamp in the on State (Non-Illuminated)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of Rsgcamp in the on State (Non-Illuminated) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca507 b:93.5 occ:1.00 O A:HOH798 3.1 51.9 1.0 OD2 A:ASP383 3.3 51.3 1.0 CB A:ALA391 4.0 46.9 1.0 CE A:MET448 4.0 72.6 1.0 NH1 A:ARG52 4.1 54.2 1.0 CB A:ARG52 4.2 56.7 1.0 CG A:ASP383 4.3 46.2 1.0 O A:HOH642 4.4 43.1 1.0 CG1 A:ILE388 4.4 46.1 1.0 CA A:ILE388 4.4 47.2 1.0 CB A:MET448 4.7 68.7 1.0 CG2 A:ILE388 4.7 48.4 1.0 CB A:ILE388 4.7 46.5 1.0 CG A:MET448 4.8 70.5 1.0 CB A:ASP383 4.8 42.6 1.0 O A:GLU387 4.8 39.4 1.0 O A:HOH638 4.8 44.0 1.0 CZ A:ARG52 4.9 58.5 1.0 CA A:ARG52 4.9 51.5 1.0

J.P.Fuenzalida-Werner, K.Mishra, R.Janowski, D.Niessing, A.C.Stiel. Genetically Encoded Photo-Switchable Indicators, New Tools For Optoacoustic Imaging and Fluorescence Nanoscopy To Be Published.